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Please include the following statement when referencing the CPTAC Assay Portal
We would like to acknowledge the National Cancer Institute’s Clinical Proteomic Tumor Analysis Consortium (CPTAC) Assay Portal (assays.cancer.gov) for developing assays and establishing criteria for the assays described in this publication.

Overview Data source: UniProt

Official Gene Symbol Other Aliases
CDH2 CDHN, NCAD
Sequence Length (AA) Molecular Weight (Da)
906 99809
Protein Name
Cadherin-2
Sources
UniProt
PhosphoSitePlus ®
GeneCards
Human Protein Atlas

Protein Sequence hover to view complete sequence

10 20 30 40 50
MCRIAGALRT LLPLLAALLQ ASVEASGEIA LCKTGFPEDV YSAVLSKDVH
60 70 80 90 100
EGQPLLNVKF SNCNGKRKVQ YESSEPADFK VDEDGMVYAV RSFPLSSEHA
110 120 130 140 150
KFLIYAQDKE TQEKWQVAVK LSLKPTLTEE SVKESAEVEE IVFPRQFSKH
160 170 180 190 200
SGHLQRQKRD WVIPPINLPE NSRGPFPQEL VRIRSDRDKN LSLRYSVTGP
210 220 230 240 250
GADQPPTGIF IINPISGQLS VTKPLDREQI ARFHLRAHAV DINGNQVENP
260 270 280 290 300
IDIVINVIDM NDNRPEFLHQ VWNGTVPEGS KPGTYVMTVT AIDADDPNAL
310 320 330 340 350
NGMLRYRIVS QAPSTPSPNM FTINNETGDI ITVAAGLDRE KVQQYTLIIQ
360 370 380 390 400
ATDMEGNPTY GLSNTATAVI TVTDVNDNPP EFTAMTFYGE VPENRVDIIV
410 420 430 440 450
ANLTVTDKDQ PHTPAWNAVY RISGGDPTGR FAIQTDPNSN DGLVTVVKPI
460 470 480 490 500
DFETNRMFVL TVAAENQVPL AKGIQHPPQS TATVSVTVID VNENPYFAPN
510 520 530 540 550
PKIIRQEEGL HAGTMLTTFT AQDPDRYMQQ NIRYTKLSDP ANWLKIDPVN
560 570 580 590 600
GQITTIAVLD RESPNVKNNI YNATFLASDN GIPPMSGTGT LQIYLLDIND
610 620 630 640 650
NAPQVLPQEA ETCETPDPNS INITALDYDI DPNAGPFAFD LPLSPVTIKR
660 670 680 690 700
NWTITRLNGD FAQLNLKIKF LEAGIYEVPI IITDSGNPPK SNISILRVKV
710 720 730 740 750
CQCDSNGDCT DVDRIVGAGL GTGAIIAILL CIIILLILVL MFVVWMKRRD
760 770 780 790 800
KERQAKQLLI DPEDDVRDNI LKYDEEGGGE EDQDYDLSQL QQPDTVEPDA
810 820 830 840 850
IKPVGIRRMD ERPIHAEPQY PVRSAAPHPG DIGDFINEGL KAADNDPTAP
860 870 880 890 900
PYDSLLVFDY EGSGSTAGSL SSLNSSSSGG EQDYDYLNDW GPRFKKLADM
906
YGGGDD

Data source: UniProt


Position of Targeted Peptide Analytes Relative to SNPs, Isoforms, and PTMs

Uniprot Database Entry PhosphoSitePlus ®

Click a point on a node
to view detailed assay information below
All other points link out to UniProt



Phosphorylation Acetylation Ubiquitylation Other

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Assay Details for CPTAC-5770 Collapse assay details

Data source: Panorama

Official Gene Symbol
CDH2
Peptide Sequence
LSDPANWLK
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
3
Peptide Start
537
Peptide End
545
CPTAC ID
CPTAC-5770
Peptide Molecular Mass
1,042.5447
Species
Homo sapiens (Human)
Assay Type
Enrichment MRM
Enrichment Method
peptide immunoaffinity
Matrix
Cell Lysate
Submitting Laboratory
Fred Hutchinson Cancer Research Center, H. Lee Moffitt Cancer Center & Research Institute, Broad Institute
Submitting Lab PI
Amanda Paulovich, John Koomen, Steven A. Carr

Publication

View Details (opens in a new window)

Targeted mass spectrometry-based assays enable multiplex quantification of receptor tyrosine kinase, MAP Kinase, and AKT signaling. Whiteaker JR, Sharma K, Hoffman MA, Kuhn E, Zhao L, Cocco AR, Schoenherr RM, Kennedy JJ, Voytovich U, Lin C, Fang B, Bowers K, Whiteley G, Colantonio S, Bocik W, Roberts R, Hiltke T, Boja E, Rodriguez H, McCormick F, Holderfield M, Carr SA, Koomen JM, Paulovich AG. Cell Reports Methods doi: 10.1016/j.crmeth.2021.100015.


Assay Parameters Collapse assay parameters

Data source: Panorama

Instrument
SCIEX 5500 / Thermo Quantiva
Internal Standard
Stable Isotope Labeled Standard
Peptide Standard Purity
>95%
Peptide Standard Label Type
13C and 15N at C-terminus K
LC
Dionex Ultimate 3000
Column Packing
C18 PepMap 100
Column Dimensions
75 micron ID x 25 cm length
Flow Rate
300 nL/min

Chromatograms

Data source: Panorama


Response Curves

Data source: Panorama

Retrieving Data

Loader

Repeatability

Data source: Panorama

  Average intra-assay CV
(within day CV)
Average inter-assay CV
(between day CV)
Total CV
equation
n=
Fragment ion / Transition Low Med High Low Med High Low Med High Low Med High
y7 (1+) 50.3 11.1 15.3 49.4 18.4 16 70.5 21.5 22.1 14 15 15
y8 (1+) 76.6 13.4 15.6 83.5 26.8 15.8 113.3 30 22.2 14 15 15
y6 (1+) 41.4 16.1 7.4 45.6 25.4 11.5 61.6 30.1 13.7 14 15 15
sum 35.5 10.9 9.9 36.6 20.3 12 51 23 15.6 14 15 15


Additional Resources and Comments


Assay Details for CPTAC-5769 Collapse assay details

Data source: Panorama

Official Gene Symbol
CDH2
Peptide Sequence
SAAPHPGDIGDFINEGLK
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
3
Peptide Start
824
Peptide End
841
CPTAC ID
CPTAC-5769
Peptide Molecular Mass
1,836.9006
Species
Homo sapiens (Human)
Assay Type
Enrichment MRM
Enrichment Method
peptide immunoaffinity
Matrix
Cell Lysate
Submitting Laboratory
Fred Hutchinson Cancer Research Center, H. Lee Moffitt Cancer Center & Research Institute, Broad Institute
Submitting Lab PI
Amanda Paulovich, John Koomen, Steven A. Carr

Publication

View Details (opens in a new window)

Targeted mass spectrometry-based assays enable multiplex quantification of receptor tyrosine kinase, MAP Kinase, and AKT signaling. Whiteaker JR, Sharma K, Hoffman MA, Kuhn E, Zhao L, Cocco AR, Schoenherr RM, Kennedy JJ, Voytovich U, Lin C, Fang B, Bowers K, Whiteley G, Colantonio S, Bocik W, Roberts R, Hiltke T, Boja E, Rodriguez H, McCormick F, Holderfield M, Carr SA, Koomen JM, Paulovich AG. Cell Reports Methods doi: 10.1016/j.crmeth.2021.100015.


Assay Parameters Collapse assay parameters

Data source: Panorama

Instrument
SCIEX 5500 / Thermo Quantiva
Internal Standard
Stable Isotope Labeled Standard
Peptide Standard Purity
>95%
Peptide Standard Label Type
13C and 15N at C-terminus K
LC
Dionex Ultimate 3000
Column Packing
C18 PepMap 100
Column Dimensions
75 micron ID x 25 cm length
Flow Rate
300 nL/min

Chromatograms

Data source: Panorama


Response Curves

Data source: Panorama

Retrieving Data

Loader

Repeatability

Data source: Panorama

  Average intra-assay CV
(within day CV)
Average inter-assay CV
(between day CV)
Total CV
equation
n=
Fragment ion / Transition Low Med High Low Med High Low Med High Low Med High
y5 (1+) 12.7 12.9 7.4 17.9 22.2 10.7 21.9 25.7 13 15 15 15
y6 (1+) 27.1 14.7 7.9 26.5 26 10.3 37.9 29.9 13 15 15 15
y7 (1+) 18.5 11.5 6 24.2 23.3 8.5 30.5 26 10.4 15 15 15
sum 17.3 12.2 6.2 20.6 23.4 9.3 26.9 26.4 11.2 15 15 15


Additional Resources and Comments


Assay Details for non-CPTAC-5371 Collapse assay details

Data source: Panorama

Official Gene Symbol
CDH2
Peptide Sequence
GPFPQELVR
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
N/A
Peptide Start
174
Peptide End
182
CPTAC ID
non-CPTAC-5371
Peptide Molecular Mass
1,041.5607
Species
Homo sapiens (Human)
Assay Type
Direct MRM
Matrix
Cell Lysate
Submitting Laboratory
Moffitt Cancer Center
Submitting Lab PI
John Koomen

Publication

View Details (opens in a new window)

Targeted mass spectrometry-based assays enable multiplex quantification of receptor tyrosine kinase, MAP Kinase, and AKT signaling. Whiteaker JR, Sharma K, Hoffman MA, Kuhn E, Zhao L, Cocco AR, Schoenherr RM, Kennedy JJ, Voytovich U, Lin C, Fang B, Bowers K, Whiteley G, Colantonio S, Bocik W, Roberts R, Hiltke T, Boja E, Rodriguez H, McCormick F, Holderfield M, Carr SA, Koomen JM, Paulovich AG. Cell Reports Methods doi: 10.1016/j.crmeth.2021.100015.


Assay Parameters Collapse assay parameters

Data source: Panorama

Instrument
RSLCnano and Quantiva
Internal Standard
Stable Isotope Labeled Standard
Peptide Standard Purity
>95%
Peptide Standard Label Type
13C and 15N at C-terminus R
LC
RSLCnano
Column Packing
C18 PepMap 100
Column Dimensions
75 micron ID x 25 cm length
Flow Rate
300 nl/min

Chromatograms

Data source: Panorama


Response Curves

Data source: Panorama

Retrieving Data

Loader

Repeatability

Data source: Panorama

  Average intra-assay CV
(within day CV)
Average inter-assay CV
(between day CV)
Total CV
equation
n=
Fragment ion / Transition Low Med High Low Med High Low Med High Low Med High
b3 (1+) 10 2.7 1.9 12.5 3.9 1.8 16 4.7 2.6 15 15 15
y5 (1+) 15.6 2.6 2.2 15.2 2.5 3.1 21.8 3.6 3.8 15 15 15
y6 (1+) 2.4 1.6 1 3.5 1.9 2.1 4.2 2.5 2.3 15 15 15
y7 (1+) 4.4 3.1 2.2 7.4 3.7 2.8 8.6 4.8 3.6 15 15 15
sum 3.1 1.1 0.7 4.2 1.8 1.7 5.2 2.1 1.8 15 15 15


Additional Resources and Comments


Assay Details for non-CPTAC-5373 Collapse assay details

Data source: Panorama

Official Gene Symbol
CDH2
Peptide Sequence
IDPVNGQITTIAVLDR
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
N/A
Peptide Start
546
Peptide End
561
CPTAC ID
non-CPTAC-5373
Peptide Molecular Mass
1,723.9468
Species
Homo sapiens (Human)
Assay Type
Direct MRM
Matrix
Cell Lysate
Submitting Laboratory
Moffitt Cancer Center
Submitting Lab PI
John Koomen

Publication

View Details (opens in a new window)

Targeted mass spectrometry-based assays enable multiplex quantification of receptor tyrosine kinase, MAP Kinase, and AKT signaling. Whiteaker JR, Sharma K, Hoffman MA, Kuhn E, Zhao L, Cocco AR, Schoenherr RM, Kennedy JJ, Voytovich U, Lin C, Fang B, Bowers K, Whiteley G, Colantonio S, Bocik W, Roberts R, Hiltke T, Boja E, Rodriguez H, McCormick F, Holderfield M, Carr SA, Koomen JM, Paulovich AG. Cell Reports Methods doi: 10.1016/j.crmeth.2021.100015.


Assay Parameters Collapse assay parameters

Data source: Panorama

Instrument
RSLCnano and Quantiva
Internal Standard
Stable Isotope Labeled Standard
Peptide Standard Purity
>95%
Peptide Standard Label Type
13C and 15N at C-terminus R
LC
RSLCnano
Column Packing
C18 PepMap 100
Column Dimensions
75 micron ID x 25 cm length
Flow Rate
300 nl/min

Chromatograms

Data source: Panorama


Response Curves

Data source: Panorama

Retrieving Data

Loader

Repeatability

Data source: Panorama

  Average intra-assay CV
(within day CV)
Average inter-assay CV
(between day CV)
Total CV
equation
n=
Fragment ion / Transition Low Med High Low Med High Low Med High Low Med High
y9 (1+) 42.3 14.3 1.7 36 11.9 2.5 55.5 18.6 3 15 15 15
y11 (1+) 49.1 17.4 2.8 39.7 12.1 5.1 63.1 21.2 5.8 15 15 15
y12 (1+) 45.7 16.1 3 39 10.2 5.4 60.1 19.1 6.2 15 15 15
y5 (1+) 38.3 15.5 3.1 34.1 10.7 5.2 51.3 18.8 6.1 15 15 15
y8 (1+) 46.8 14 2.1 37.3 11.8 4 59.8 18.3 4.5 15 15 15
sum 44 14.8 1.6 36.3 10.7 3.9 57 18.3 4.2 15 15 15


Additional Resources and Comments


Assay Details for non-CPTAC-5374 Collapse assay details

Data source: Panorama

Official Gene Symbol
CDH2
Peptide Sequence
LNGDFAQLNLK
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
N/A
Peptide Start
657
Peptide End
667
CPTAC ID
non-CPTAC-5374
Peptide Molecular Mass
1,231.6561
Species
Homo sapiens (Human)
Assay Type
Direct MRM
Matrix
Cell Lysate
Submitting Laboratory
Moffitt Cancer Center
Submitting Lab PI
John Koomen

Publication

View Details (opens in a new window)

Targeted mass spectrometry-based assays enable multiplex quantification of receptor tyrosine kinase, MAP Kinase, and AKT signaling. Whiteaker JR, Sharma K, Hoffman MA, Kuhn E, Zhao L, Cocco AR, Schoenherr RM, Kennedy JJ, Voytovich U, Lin C, Fang B, Bowers K, Whiteley G, Colantonio S, Bocik W, Roberts R, Hiltke T, Boja E, Rodriguez H, McCormick F, Holderfield M, Carr SA, Koomen JM, Paulovich AG. Cell Reports Methods doi: 10.1016/j.crmeth.2021.100015.


Assay Parameters Collapse assay parameters

Data source: Panorama

Instrument
RSLCnano and Quantiva
Internal Standard
Stable Isotope Labeled Standard
Peptide Standard Purity
>95%
Peptide Standard Label Type
13C and 15N at C-terminus K
LC
RSLCnano
Column Packing
C18 PepMap 100
Column Dimensions
75 micron ID x 25 cm length
Flow Rate
300 nl/min

Chromatograms

Data source: Panorama


Response Curves

Data source: Panorama

Retrieving Data

Loader

Repeatability

Data source: Panorama

  Average intra-assay CV
(within day CV)
Average inter-assay CV
(between day CV)
Total CV
equation
n=
Fragment ion / Transition Low Med High Low Med High Low Med High Low Med High
y9 (1+) 6.5 4.2 1.8 8.5 6.6 2.7 10.7 7.8 3.2 15 15 15
y6 (1+) 7.9 2.8 1.8 8.1 3.4 2.9 11.3 4.4 3.4 15 15 15
y7 (1+) 5.3 5.1 2.5 5.2 6.2 2.6 7.4 8 3.6 15 15 15
sum 4.3 2.1 1.2 4.6 4 2.2 6.3 4.5 2.5 15 15 15


Additional Resources and Comments


Assay Details for non-CPTAC-5543 Collapse assay details

Data source: Panorama

Official Gene Symbol
CDH2
Peptide Sequence
LSDPANWLK
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
6
Peptide Start
537
Peptide End
545
CPTAC ID
non-CPTAC-5543
Peptide Molecular Mass
1,042.5447
Species
Homo sapiens (Human)
Assay Type
Enrichment MRM
Enrichment Method
peptide immunoaffinity
Matrix
Cell Line
Submitting Laboratory
Moffitt Cancer Center
Submitting Lab PI
John Koomen

Publication

View Details (opens in a new window)

Targeted mass spectrometry-based assays enable multiplex quantification of receptor tyrosine kinase, MAP Kinase, and AKT signaling. Whiteaker JR, Sharma K, Hoffman MA, Kuhn E, Zhao L, Cocco AR, Schoenherr RM, Kennedy JJ, Voytovich U, Lin C, Fang B, Bowers K, Whiteley G, Colantonio S, Bocik W, Roberts R, Hiltke T, Boja E, Rodriguez H, McCormick F, Holderfield M, Carr SA, Koomen JM, Paulovich AG. Cell Reports Methods doi: 10.1016/j.crmeth.2021.100015.


Assay Parameters Collapse assay parameters

Data source: Panorama

Instrument
RSLCnano and Quantiva
Internal Standard
SIS Peptide
Peptide Standard Purity
>95%
Peptide Standard Label Type
13C and 15N at C-terminus K
LC
RSLCnano
Column Packing
C18 PepMap100
Column Dimensions
75 micron ID x 25 cm length
Flow Rate
300 nL/min

Chromatograms

Data source: Panorama


Response Curves

Data source: Panorama

Retrieving Data

Loader

Repeatability

Data source: Panorama

  Average intra-assay CV
(within day CV)
Average inter-assay CV
(between day CV)
Total CV
equation
n=
Fragment ion / Transition Low Med High Low Med High Low Med High Low Med High
y5 (1+) 65.5 20.2 16.3 84.3 35 24.3 106.8 40.4 29.3 10 11 11
y6 (1+) 17.8 17.4 5.2 31.4 27.3 10.5 36.1 32.4 11.7 10 11 11
y7 (1+) 46.5 11.8 13 30.1 20.7 17.6 55.4 23.8 21.9 10 11 11
y8 (1+) 50.3 14.6 9.9 36.1 24.8 16.5 61.9 28.8 19.2 10 11 11
sum 18.7 11.6 6.6 17.3 21.3 13.3 25.5 24.3 14.8 10 11 11


Additional Resources and Comments


Assay Details for non-CPTAC-5544 Collapse assay details

Data source: Panorama

Official Gene Symbol
CDH2
Peptide Sequence
SAAPHPGDIGDFINEGLK
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
6
Peptide Start
824
Peptide End
841
CPTAC ID
non-CPTAC-5544
Peptide Molecular Mass
1,836.9006
Species
Homo sapiens (Human)
Assay Type
Enrichment MRM
Enrichment Method
peptide immunoaffinity
Matrix
Cell Line
Submitting Laboratory
Moffitt Cancer Center
Submitting Lab PI
John Koomen

Publication

View Details (opens in a new window)

Targeted mass spectrometry-based assays enable multiplex quantification of receptor tyrosine kinase, MAP Kinase, and AKT signaling. Whiteaker JR, Sharma K, Hoffman MA, Kuhn E, Zhao L, Cocco AR, Schoenherr RM, Kennedy JJ, Voytovich U, Lin C, Fang B, Bowers K, Whiteley G, Colantonio S, Bocik W, Roberts R, Hiltke T, Boja E, Rodriguez H, McCormick F, Holderfield M, Carr SA, Koomen JM, Paulovich AG. Cell Reports Methods doi: 10.1016/j.crmeth.2021.100015.


Assay Parameters Collapse assay parameters

Data source: Panorama

Instrument
RSLCnano and Quantiva
Internal Standard
SIS Peptide
Peptide Standard Purity
>95%
Peptide Standard Label Type
13C and 15N at C-terminus K
LC
RSLCnano
Column Packing
C18 PepMap100
Column Dimensions
75 micron ID x 25 cm length
Flow Rate
300 nL/min

Chromatograms

Data source: Panorama


Response Curves

Data source: Panorama

Retrieving Data

Loader

Repeatability

Data source: Panorama

  Average intra-assay CV
(within day CV)
Average inter-assay CV
(between day CV)
Total CV
equation
n=
Fragment ion / Transition Low Med High Low Med High Low Med High Low Med High
y3 (1+) 26.2 7.4 8.7 24.3 24.2 9.8 35.7 25.3 13.1 14 14 14
y5 (1+) 13.4 12.9 5.6 19.2 21.7 7.8 23.4 25.2 9.6 14 14 14
y6 (1+) 27.3 10.4 5.9 28.9 24.2 9.2 39.8 26.3 10.9 14 14 14
y7 (1+) 17.3 11.2 5.2 26.4 24.7 7.4 31.6 27.1 9 14 14 14
y9 (1+) 35.1 11.6 9.7 34 23.7 9.6 48.9 26.4 13.6 14 14 14
sum 18.9 9.8 5.5 20.5 23 8.1 27.9 25 9.8 14 14 14


Additional Resources and Comments